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1OGB
Asym. Unit
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Asym.Unit (196 KB)
Biol.Unit 1 (189 KB)
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(1)
Title
:
CHITINASE B FROM SERRATIA MARCESCENS MUTANT D142N
Authors
:
G. Vaaje-Kolstad, D. R. Houston, F. V. Rao, M. G. Peter, B. Synstad, D. M. F. Van Aalten, V. G. H. Eijsink
Date
:
29 Apr 03 (Deposition) - 27 Apr 04 (Release) - 24 Feb 09 (Revision)
Method
:
X-RAY DIFFRACTION
Resolution
:
1.85
Chains
:
Asym. Unit : A,B
Biol. Unit 1: A,B (1x)
Keywords
:
Hydrolase, Chitin Degradation, Glycoside Hydrolase
(Keyword Search:
[
Gene Ontology, PubMed, Web (Google)
]
)
Reference
:
G. Vaaje-Kolstad, D. R. Houston, F. V. Rao, M. G. Peter, B. Synstad, D. M. F. Van Aalten, V. G. H. Eijsink
Structure Of The D142N Mutant Of The Family 18 Chitinase Chib From Serratia Marcescens And Its Complex With Allosamidin
Biochim. Biophys. Acta V. 1696 103 2004
(for further references see the
PDB file header
)
[
close entry info
]
Hetero Components
(2, 30)
Info
All Hetero Components
1a: GLYCEROL (GOLa)
1b: GLYCEROL (GOLb)
1c: GLYCEROL (GOLc)
1d: GLYCEROL (GOLd)
1e: GLYCEROL (GOLe)
1f: GLYCEROL (GOLf)
1g: GLYCEROL (GOLg)
1h: GLYCEROL (GOLh)
1i: GLYCEROL (GOLi)
1j: GLYCEROL (GOLj)
1k: GLYCEROL (GOLk)
1l: GLYCEROL (GOLl)
1m: GLYCEROL (GOLm)
1n: GLYCEROL (GOLn)
1o: GLYCEROL (GOLo)
1p: GLYCEROL (GOLp)
1q: GLYCEROL (GOLq)
1r: GLYCEROL (GOLr)
1s: GLYCEROL (GOLs)
1t: GLYCEROL (GOLt)
1u: GLYCEROL (GOLu)
1v: GLYCEROL (GOLv)
1w: GLYCEROL (GOLw)
2a: SULFATE ION (SO4a)
2b: SULFATE ION (SO4b)
2c: SULFATE ION (SO4c)
2d: SULFATE ION (SO4d)
2e: SULFATE ION (SO4e)
2f: SULFATE ION (SO4f)
2g: SULFATE ION (SO4g)
View:
Select:
Label:
No.
Name
Count
Type
Full Name
1
GOL
23
Ligand/Ion
GLYCEROL
2
SO4
7
Ligand/Ion
SULFATE ION
[
close Hetero Component info
]
Sites
(30, 30)
Info
All Sites
01: AC1 (SOFTWARE)
02: AC2 (SOFTWARE)
03: AC3 (SOFTWARE)
04: AC4 (SOFTWARE)
05: AC5 (SOFTWARE)
06: AC6 (SOFTWARE)
07: AC7 (SOFTWARE)
08: AC8 (SOFTWARE)
09: AC9 (SOFTWARE)
10: BC1 (SOFTWARE)
11: BC2 (SOFTWARE)
12: BC3 (SOFTWARE)
13: BC4 (SOFTWARE)
14: BC5 (SOFTWARE)
15: BC6 (SOFTWARE)
16: BC7 (SOFTWARE)
17: BC8 (SOFTWARE)
18: BC9 (SOFTWARE)
19: CC1 (SOFTWARE)
20: CC2 (SOFTWARE)
21: CC3 (SOFTWARE)
22: CC4 (SOFTWARE)
23: CC5 (SOFTWARE)
24: CC6 (SOFTWARE)
25: CC7 (SOFTWARE)
26: CC8 (SOFTWARE)
27: CC9 (SOFTWARE)
28: DC1 (SOFTWARE)
29: DC2 (SOFTWARE)
30: DC3 (SOFTWARE)
View:
Select:
Label:
No.
Name
Evidence
Residues
Description
01
AC1
SOFTWARE
PRO A:281 , SER A:282 , HOH A:2580 , HOH A:2581
BINDING SITE FOR RESIDUE SO4 A1510
02
AC2
SOFTWARE
ASN A:55 , SER A:56 , LYS A:362 , THR A:436 , HOH A:2583 , HOH A:2584 , HOH A:2586 , HOH A:2587
BINDING SITE FOR RESIDUE SO4 A1511
03
AC3
SOFTWARE
ASN A:352 , HOH A:2588 , HOH A:2589 , HOH A:2590 , PRO B:454 , ALA B:455 , HOH B:2041 , HOH B:2617
BINDING SITE FOR RESIDUE SO4 A1512
04
AC4
SOFTWARE
ARG A:420 , HOH A:2501 , HOH A:2503 , HOH A:2591 , LYS B:386 , ARG B:420
BINDING SITE FOR RESIDUE SO4 A1513
05
AC5
SOFTWARE
ARG A:343 , GLN A:347 , ARG A:410 , HOH A:2402 , HOH A:2593
BINDING SITE FOR RESIDUE SO4 A1514
06
AC6
SOFTWARE
THR B:26 , ARG B:410 , HOH B:2058 , HOH B:2075 , HOH B:2691 , HOH B:2692 , HOH B:2693
BINDING SITE FOR RESIDUE SO4 B1512
07
AC7
SOFTWARE
ARG A:77 , SER B:2 , THR B:3 , HOH B:2694
BINDING SITE FOR RESIDUE SO4 B1513
08
AC8
SOFTWARE
PRO A:260 , PHE A:263 , SER A:264 , ARG A:439 , TYR A:440 , THR A:441 , HOH A:2354 , HOH A:2564 , HOH A:2565
BINDING SITE FOR RESIDUE GOL A1499
09
AC9
SOFTWARE
GLU A:221 , PHE A:239 , HOH A:2566 , HOH A:2567 , HOH A:2568 , GLY B:480
BINDING SITE FOR RESIDUE GOL A1500
10
BC1
SOFTWARE
PHE A:190 , ASP A:215 , LEU A:216 , ALA A:217 , TRP A:220 , GLU A:221 , GOL A:1507
BINDING SITE FOR RESIDUE GOL A1501
11
BC2
SOFTWARE
LYS A:132 , GLN A:168 , THR A:171 , HOH A:2212 , HOH A:2569 , LYS B:115
BINDING SITE FOR RESIDUE GOL A1502
12
BC3
SOFTWARE
ARG A:162 , ALA A:204 , ASP A:207 , LYS A:284 , HOH A:2056 , HOH A:2256 , HOH A:2571
BINDING SITE FOR RESIDUE GOL A1503
13
BC4
SOFTWARE
TYR A:323 , LEU A:325 , VAL A:326 , GLY A:327 , CYS A:328 , VAL A:332 , HOH A:2399 , HOH A:2572 , HOH A:2573 , HOH A:2574
BINDING SITE FOR RESIDUE GOL A1504
14
BC5
SOFTWARE
ARG A:89 , ALA A:176 , GLN A:180 , HOH A:2149 , HOH A:2275 , HOH A:2575 , HOH A:2576
BINDING SITE FOR RESIDUE GOL A1505
15
BC6
SOFTWARE
ARG A:244 , PHE A:259 , PRO A:260 , SER A:261 , TRP B:252
BINDING SITE FOR RESIDUE GOL A1506
16
BC7
SOFTWARE
TRP A:97 , PHE A:191 , TRP A:220 , GOL A:1501 , GOL A:1508 , GOL A:1509 , HOH A:2577 , TYR B:481
BINDING SITE FOR RESIDUE GOL A1507
17
BC8
SOFTWARE
TRP A:97 , GOL A:1507 , HOH A:2226
BINDING SITE FOR RESIDUE GOL A1508
18
BC9
SOFTWARE
TRP A:220 , GLY A:314 , GOL A:1507 , TYR B:481
BINDING SITE FOR RESIDUE GOL A1509
19
CC1
SOFTWARE
PRO B:260 , PHE B:263 , SER B:264 , ARG B:439 , TYR B:440 , THR B:441 , HOH B:2408 , HOH B:2667 , HOH B:2668
BINDING SITE FOR RESIDUE GOL B1500
20
CC2
SOFTWARE
TYR B:323 , LEU B:325 , GLY B:327 , CYS B:328 , GLU B:329 , VAL B:332 , HOH B:2462 , HOH B:2669 , HOH B:2670 , HOH B:2671 , HOH B:2672
BINDING SITE FOR RESIDUE GOL B1501
21
CC3
SOFTWARE
THR B:3 , ARG B:4 , HIS B:46 , ARG B:89 , HOH B:2185 , HOH B:2673
BINDING SITE FOR RESIDUE GOL B1502
22
CC4
SOFTWARE
GLY A:480 , GLU B:221 , PHE B:239 , HOH B:2676
BINDING SITE FOR RESIDUE GOL B1503
23
CC5
SOFTWARE
PHE B:190 , ASP B:215 , LEU B:216 , ALA B:217 , TRP B:220 , GLU B:221 , HOH B:2677
BINDING SITE FOR RESIDUE GOL B1504
24
CC6
SOFTWARE
ARG B:162 , ALA B:204 , ASP B:207 , LYS B:284 , HOH B:2678 , HOH B:2679 , HOH B:2680
BINDING SITE FOR RESIDUE GOL B1505
25
CC7
SOFTWARE
TRP A:479 , GLY A:480 , TYR A:481 , ILE A:482 , PHE B:190 , PHE B:191 , ARG B:194 , HOH B:2682 , HOH B:2683
BINDING SITE FOR RESIDUE GOL B1506
26
CC8
SOFTWARE
TYR B:11 , PHE B:12 , GLN B:17 , VAL B:29 , PRO B:30 , PHE B:31 , HIS B:404 , HOH B:2545 , HOH B:2546 , HOH B:2685
BINDING SITE FOR RESIDUE GOL B1507
27
CC9
SOFTWARE
SER B:197 , LEU B:248 , TRP B:250 , MET B:277 , HOH B:2686
BINDING SITE FOR RESIDUE GOL B1508
28
DC1
SOFTWARE
LYS B:390 , SER B:430 , LEU B:432 , HOH B:2587 , HOH B:2687 , HOH B:2688
BINDING SITE FOR RESIDUE GOL B1509
29
DC2
SOFTWARE
ASP A:426 , GLU B:383 , LYS B:386 , HOH B:2689
BINDING SITE FOR RESIDUE GOL B1510
30
DC3
SOFTWARE
TRP B:97 , HOH B:2271
BINDING SITE FOR RESIDUE GOL B1511
[
close Site info
]
SAPs(SNPs)/Variants
(0, 0)
Info
(mutated residues are not available)
All SNPs/Variants
View:
Select:
Label:
Sorry, no Info available
[
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]
PROSITE Patterns/Profiles
(1, 2)
Info
All PROSITE Patterns/Profiles
1: CHITINASE_18 (A:136-144,B:136-144)
;
View:
Select:
Label:
End label:
PROSITE
UniProtKB
PDB
No.
ID
AC
Description
ID
Location
Count
Location
1
CHITINASE_18
PS01095
Chitinases family 18 active site.
CHIB_SERMA
136-144
2
A:136-144
B:136-144
[
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]
Exons
(0, 0)
Info
All Exons
View:
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All Exon Boundaries
View:
Label:
Note:
Exon boundaries colored in "red" are actually farther away from the residue due to missing residues in the structure.
SCOP Domains
(3, 6)
Info
All SCOP Domains
1a: SCOP_d1ogba1 (A:447-499)
1b: SCOP_d1ogbb1 (B:447-499)
2a: SCOP_d1ogba3 (A:292-379)
2b: SCOP_d1ogbb3 (B:292-379)
3a: SCOP_d1ogba2 (A:2-291,A:380-446)
3b: SCOP_d1ogbb2 (B:2-291,B:380-446)
View:
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Classes
(
)
(
)
Folds
(
)
(
)
Superfamilies
(
)
(
)
Families
(
)
(
)
Protein Domains
(
)
(
)
Organisms
(
)
(
)
Class
:
All beta proteins
(24004)
Fold
:
WW domain-like
(101)
Superfamily
:
Carbohydrate binding domain
(20)
Family
:
Carbohydrate binding domain
(20)
Protein domain
:
Chitinase B, C-terminal domain
(18)
Serratia marcescens [TaxId: 615]
(18)
1a
d1ogba1
A:447-499
1b
d1ogbb1
B:447-499
Class
:
Alpha and beta proteins (a+b)
(23004)
Fold
:
FKBP-like
(309)
Superfamily
:
Chitinase insertion domain
(107)
Family
:
Chitinase insertion domain
(107)
Protein domain
:
Chitinase B
(18)
Serratia marcescens [TaxId: 615]
(18)
2a
d1ogba3
A:292-379
2b
d1ogbb3
B:292-379
Class
:
Alpha and beta proteins (a/b)
(23833)
Fold
:
TIM beta/alpha-barrel
(3956)
Superfamily
:
(Trans)glycosidases
(1191)
Family
:
Type II chitinase
(131)
Protein domain
:
Chitinase B, catalytic domain
(18)
Serratia marcescens [TaxId: 615]
(18)
3a
d1ogba2
A:2-291,A:380-446
3b
d1ogbb2
B:2-291,B:380-446
[
close SCOP info
]
CATH Domains
(3, 6)
Info
all CATH domains
1a: CATH_1ogbA01 (A:2-290,A:381-448)
1b: CATH_1ogbB01 (B:2-290,B:381-448)
2a: CATH_1ogbA02 (A:291-380)
2b: CATH_1ogbB02 (B:291-380)
3a: CATH_1ogbA03 (A:449-499)
3b: CATH_1ogbB03 (B:449-499)
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)
Architectures
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(
)
Topologies
(
)
(
)
Homologous Superfamilies
(
)
(
)
Organisms
(
)
(
)
Class
:
Alpha Beta
(26913)
Architecture
:
Alpha-Beta Barrel
(2994)
Topology
:
TIM Barrel
(2806)
Homologous Superfamily
:
Glycosidases
(843)
Serratia marcescens. Organism_taxid: 615. Strain: bjl200.
(4)
1a
1ogbA01
A:2-290,A:381-448
1b
1ogbB01
B:2-290,B:381-448
Architecture
:
Roll
(3276)
Topology
:
Chitinase A; domain 3
(225)
Homologous Superfamily
:
[code=3.10.50.10, no name defined]
(121)
Serratia marcescens. Organism_taxid: 615. Strain: bjl200.
(4)
2a
1ogbA02
A:291-380
2b
1ogbB02
B:291-380
Class
:
Mainly Beta
(13760)
Architecture
:
Ribbon
(789)
Topology
:
Seminal Fluid Protein PDC-109 (Domain B)
(33)
Homologous Superfamily
:
[code=2.10.10.20, no name defined]
(20)
Serratia marcescens. Organism_taxid: 615. Strain: bjl200.
(4)
3a
1ogbA03
A:449-499
3b
1ogbB03
B:449-499
[
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]
Pfam Domains
(2, 4)
Info
all PFAM domains
1a: PFAM_Glyco_hydro_18_1ogbB01 (B:5-408)
1b: PFAM_Glyco_hydro_18_1ogbB02 (B:5-408)
2a: PFAM_CBM_5_12_1ogbB03 (B:453-492)
2b: PFAM_CBM_5_12_1ogbB04 (B:453-492)
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Clans
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)
Families
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)
(
)
Organisms
(
)
(
)
Clan
:
Glyco_hydro_tim
(488)
Family
:
Glyco_hydro_18
(72)
Serratia marcescens
(17)
1a
Glyco_hydro_18-1ogbB01
B:5-408
1b
Glyco_hydro_18-1ogbB02
B:5-408
Clan
:
no clan defined [family: CBM_5_12]
(10)
Family
:
CBM_5_12
(10)
Serratia marcescens
(8)
2a
CBM_5_12-1ogbB03
B:453-492
2b
CBM_5_12-1ogbB04
B:453-492
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